genome.fa.s11.2.7.7.80.10.50.1000.28.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   

This is table  28  of  210  ( 25152 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9104046--9104303	24	11.1	24	67	15	112	24	10	20	44	1.83
9104029--9104318	69	4.2	69	92	0	445	25	10	20	43	1.83
9104105--9104295	47	4.1	45	67	17	113	24	11	20	42	1.85
9104045--9104347	23	13.0	24	69	16	126	26	10	20	42	1.85
9105191--9105338	43	3.4	43	79	5	156	32	25	15	26	1.95
9107183--9107207	5	5.0	5	100	0	50	20	0	0	80	0.72
9110537--9110603	28	2.4	28	92	0	107	29	10	28	31	1.90
9118706--9118749	22	2.0	22	95	0	79	52	4	2	40	1.34
9123055--9123115	24	2.4	26	81	13	81	67	1	6	24	1.24
9123072--9123118	24	2.0	24	100	0	94	61	0	8	29	1.25
9130014--9130076	22	3.0	19	77	15	54	46	1	11	41	1.49
9131425--9131495	26	2.7	26	84	0	97	25	28	21	25	1.99
9131705--9131778	13	5.7	13	83	0	85	45	1	20	32	1.59
9131708--9131778	26	2.7	26	91	0	106	45	1	21	32	1.61
9133045--9133131	35	2.5	35	88	3	131	12	17	34	35	1.87
9134913--9135155	17	13.3	18	71	18	121	45	10	13	30	1.77
9134912--9135123	17	11.7	18	73	16	154	44	11	14	29	1.79
9135111--9135153	21	2.0	21	86	4	59	48	6	4	39	1.51
9135217--9135263	17	2.7	17	81	15	60	48	6	12	31	1.66
9135217--9135261	18	2.6	18	82	13	58	48	4	13	33	1.62
9135726--9135774	24	2.0	24	84	7	64	2	24	0	73	0.94
9136021--9136066	17	2.7	17	82	0	65	6	28	47	17	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9136093--9136146	16	3.2	17	81	7	65	0	24	0	75	0.80
9136094--9136163	9	7.1	9	75	20	52	0	21	0	78	0.75
9136245--9136309	14	4.4	14	77	9	58	0	23	4	72	1.03
9136257--9136321	20	3.1	21	78	14	64	0	18	7	73	1.06
9136345--9136378	17	2.0	17	88	0	50	8	20	52	17	1.71
9136437--9136487	22	2.4	21	76	3	57	0	15	5	78	0.93
9136645--9136903	30	8.7	30	81	1	306	40	1	21	36	1.63
9136645--9136903	59	4.3	60	86	1	324	40	1	21	36	1.63
9136645--9136903	89	2.9	90	91	1	405	40	1	21	36	1.63
9137846--9137983	42	3.3	42	81	6	154	31	24	13	29	1.94
9148193--9148229	2	19.0	2	94	5	67	51	0	0	48	1.00
9148383--9148422	18	2.2	18	86	0	53	52	2	2	42	1.28
9152006--9152222	99	2.2	98	82	5	242	25	35	0	38	1.60
9152035--9152222	99	1.9	98	86	3	270	25	35	0	38	1.60
9152208--9152441	127	1.9	122	88	4	351	21	33	0	44	1.58
9155823--9155852	16	1.9	15	93	6	51	30	10	0	60	1.30
9157921--9158000	17	4.4	18	79	14	85	66	1	1	31	1.08
9158113--9158162	21	2.4	21	86	6	66	56	8	2	34	1.40
9158764--9158811	9	5.3	9	82	9	62	27	0	4	68	1.07
9158802--9158906	42	2.4	43	79	14	110	31	1	2	63	1.19
9158830--9158862	12	2.8	12	90	9	50	27	0	0	72	0.85
9159175--9159213	19	2.1	19	85	9	53	53	0	2	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9160286--9160334	21	2.3	20	86	10	71	63	8	8	20	1.48
9160619--9160674	24	2.2	24	84	12	69	67	1	3	26	1.16
9160617--9160676	25	2.4	25	81	13	70	66	1	3	28	1.17
9163375--9163476	24	4.2	24	70	17	68	37	20	25	16	1.93
9163627--9163708	24	3.4	23	77	9	74	35	15	29	19	1.93
9164020--9164071	10	5.1	10	79	9	52	42	13	0	44	1.44
9164030--9164071	21	2.0	20	90	4	66	42	14	0	42	1.45
9164040--9164069	15	1.9	16	93	6	53	40	13	0	46	1.43
9165325--9165364	12	3.6	12	74	19	50	35	0	0	65	0.93
9168996--9169039	19	2.3	19	88	0	61	56	27	2	13	1.49
9171669--9172073	90	4.4	90	87	6	569	49	10	9	30	1.68
9171669--9172073	193	2.2	182	88	9	622	49	10	9	30	1.68
9172377--9172426	17	2.9	17	93	0	82	40	6	2	52	1.38
9172744--9172805	19	3.2	19	80	13	81	50	14	14	20	1.78
9172940--9172976	3	12.0	3	94	5	65	64	0	35	0	0.94
9172942--9172973	16	2.0	16	100	0	64	62	0	37	0	0.95
9172940--9172977	19	2.0	19	100	0	76	63	0	36	0	0.95
9182023--9182163	40	3.6	40	76	6	153	31	24	17	26	1.97
9182320--9182377	24	2.4	24	75	16	57	48	15	0	36	1.45
9183130--9183209	3	26.7	3	100	0	160	66	0	0	33	0.92
9183619--9183669	22	2.3	22	90	10	86	29	0	0	70	0.87
9184258--9184287	13	2.3	13	100	0	60	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9188357--9188385	2	14.5	2	100	0	58	48	0	0	51	1.00
9191149--9191188	20	2.0	20	85	9	55	37	10	10	42	1.72
9191620--9191654	14	2.5	14	90	0	52	25	5	5	62	1.40
9194022--9194180	60	2.6	60	81	11	189	21	18	15	44	1.86
9194625--9194703	31	2.5	31	87	0	113	49	12	12	25	1.76
9197976--9198058	15	5.3	15	76	11	69	50	0	48	1	1.08
9197962--9198136	33	5.7	32	75	15	111	46	0	52	0	1.09
9198006--9198149	3	48.0	3	76	5	112	44	0	54	0	1.04
9198009--9198149	15	9.6	15	80	7	139	44	0	54	0	1.05
9197970--9198138	36	4.7	35	77	10	155	46	0	52	0	1.09
9197962--9198130	6	27.2	6	70	15	94	46	0	52	0	1.09
9202709--9202764	29	1.9	29	85	7	78	62	5	8	23	1.45
9202930--9202993	27	2.3	28	86	2	85	21	21	4	51	1.66
9208647--9208684	20	1.9	20	88	0	58	28	0	5	65	1.14
9213258--9213299	22	1.9	22	90	0	66	9	19	28	42	1.82
9213361--9213528	43	3.9	43	92	0	255	29	29	19	22	1.98
9213385--9213571	43	4.3	43	87	2	155	27	31	18	22	1.97
9213363--9213571	86	2.4	86	84	3	224	29	30	18	22	1.97
9213618--9213653	16	2.2	16	90	0	54	52	8	0	38	1.32
9218706--9218793	20	4.4	20	64	8	54	45	1	5	47	1.33
9219115--9219220	7	15.0	7	72	13	56	39	41	0	18	1.51
9219116--9219220	49	2.1	50	82	5	124	40	40	0	19	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9220180--9220298	41	2.9	40	78	8	132	30	24	24	21	1.99
9220357--9220471	40	2.9	40	80	2	144	20	21	23	34	1.96
9226362--9226396	15	2.3	15	95	0	61	14	14	17	54	1.72
9236846--9236885	20	2.0	20	95	0	71	42	15	12	30	1.83
9239987--9240043	8	7.9	7	77	16	55	78	3	3	14	1.01
9249357--9249396	16	2.5	17	84	11	50	37	7	52	2	1.43
9256613--9256747	67	2.0	67	97	0	252	32	14	22	30	1.94
9263035--9263114	38	2.1	38	100	0	160	28	15	23	32	1.95
9267201--9267359	42	3.7	42	76	15	132	30	27	17	23	1.97
9268508--9268536	14	2.0	15	93	6	51	51	20	0	27	1.47
9276741--9276776	15	2.5	14	86	8	54	44	8	0	47	1.33
9279669--9279712	13	3.4	13	78	12	54	38	29	2	29	1.69
9281278--9281318	2	20.5	2	100	0	82	51	0	0	48	1.00
9289536--9289579	21	2.1	21	87	8	63	45	11	9	34	1.72
9292272--9292297	13	2.0	13	100	0	52	46	0	0	53	1.00
9297748--9297798	25	2.0	25	88	0	75	58	21	0	19	1.39
9298634--9298682	20	2.4	22	83	10	59	67	10	0	22	1.20
9300909--9300947	14	2.8	14	92	0	60	2	35	0	61	1.10
9301014--9301111	27	3.6	27	80	2	126	11	29	32	26	1.91
9301693--9301758	10	6.8	9	73	14	51	65	1	4	28	1.21
9301767--9301895	61	2.1	59	84	10	179	28	6	7	56	1.54
9301788--9301911	61	2.0	61	100	0	248	24	6	8	61	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9302300--9302334	5	7.0	5	93	0	52	14	0	45	40	1.45
9309134--9309186	24	2.2	25	83	10	65	39	1	3	54	1.29
9310520--9310563	19	2.3	19	88	0	61	29	11	2	56	1.46
9315738--9315795	27	2.1	28	84	6	75	27	5	0	67	1.12
9317902--9317930	2	14.5	2	100	0	58	51	0	0	48	1.00
9326138--9326478	169	2.0	169	87	2	488	39	17	10	32	1.84
9327905--9327930	2	13.0	2	100	0	52	0	50	0	50	1.00
9334909--9334933	7	3.6	7	100	0	50	16	0	40	44	1.47
9336981--9337019	11	3.5	11	86	6	60	15	0	7	76	0.99
9336971--9337019	23	2.1	24	96	3	91	12	2	8	77	1.07

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210